UM  > Faculty of Health Sciences
cSSMD: Assessing collective activity for addressing off-target effects in genome-scale RNA interference screens
Zhang X.D.1; Santini F.1; Lacson R.1; Marine S.D.1; Wu Q.2; Benetti L.4; Yang R.1; McCampbell A.1; Berger J.P.1; Toolan D.M.1; Stec E.M.1; Holder D.J.1; Soper K.A.1; Heyse J.F.1; Ferrer M.3
2011-10-01
Source PublicationBioinformatics
ISSN13674803 14602059
Volume27Issue:20Pages:2775-2781
AbstractMotivation: Off-target activity commonly exists in RNA interference (RNAi) screens and often generates false positives. Existing analytic methods for addressing the off-target effects are demonstrably inadequate in RNAi confirmatory screens. Results: Here, we present an analytic method assessing the collective activity of multiple short interfering RNAs (siRNAs) targeting a gene. Using this method, we can not only reduce the impact of off-target activities, but also evaluate the specific effect of an siRNA, thus providing information about potential off-target effects. Using in-house RNAi screens, we demonstrate that our method obtains more reasonable and sensible results than current methods such as the redundant siRNA activity (RSA) method, the RNAi gene enrichment ranking (RIGER) method, the frequency approach and the t-test. © The Author 2011. Published by Oxford University Press. All rights reserved.
DOI10.1093/bioinformatics/btr474
URLView the original
Language英語
Fulltext Access
Citation statistics
Cited Times [WOS]:14   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionFaculty of Health Sciences
Affiliation1.Merck Research Laboratories
2.University of Pennsylvania
3.National Institutes of Health, Bethesda
4.Merck & Co., Inc.
Recommended Citation
GB/T 7714
Zhang X.D.,Santini F.,Lacson R.,et al. cSSMD: Assessing collective activity for addressing off-target effects in genome-scale RNA interference screens[J]. Bioinformatics,2011,27(20):2775-2781.
APA Zhang X.D..,Santini F..,Lacson R..,Marine S.D..,Wu Q..,...&Ferrer M..(2011).cSSMD: Assessing collective activity for addressing off-target effects in genome-scale RNA interference screens.Bioinformatics,27(20),2775-2781.
MLA Zhang X.D.,et al."cSSMD: Assessing collective activity for addressing off-target effects in genome-scale RNA interference screens".Bioinformatics 27.20(2011):2775-2781.
Files in This Item:
There are no files associated with this item.
Related Services
Recommend this item
Bookmark
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Zhang X.D.]'s Articles
[Santini F.]'s Articles
[Lacson R.]'s Articles
Baidu academic
Similar articles in Baidu academic
[Zhang X.D.]'s Articles
[Santini F.]'s Articles
[Lacson R.]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Zhang X.D.]'s Articles
[Santini F.]'s Articles
[Lacson R.]'s Articles
Terms of Use
No data!
Social Bookmark/Share
All comments (0)
No comment.
 

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.